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  • Biomart MCP

    jzinno
    A
    license
    A
    quality
    D
    maintenance
    A Model Context Protocol server that interfaces with Biomart databases, allowing models to discover biological datasets, explore attributes/filters, retrieve biological data, and translate between different biological identifiers.
    8
    8
    MIT

  • string-mcp

    meringlab
    A
    license
    Not graded
    quality
    B
    maintenance
    MCP server that exposes STRING database functionality, allowing AI agents to resolve protein identifiers, retrieve interaction networks, perform homology lookups, and run functional enrichment analysis.
    5
    MIT

  • GenomeMCP

    Eldergenix
    A
    license
    Not graded
    quality
    D
    maintenance
    Enables AI agents to query clinical genomics databases, retrieve supporting literature, analyze population genetics, and visualize biological pathways.
    22
    MIT

  • ncbi-datasets-mcp

    syntheticgio
    F
    license
    A
    quality
    A
    maintenance
    An MCP server that gives Claude access to NCBI Datasets v2 — search genome assembly metadata, retrieve taxonomy records, and download data packages without leaving your conversation.
    10

  • mcp-ubergraph-query

    twhetzel
    A
    license
    A
    quality
    D
    maintenance
    Enables AI assistants to query the Ubergraph biomedical ontology SPARQL endpoint with tools for custom SPARQL queries, term lookup, search, and hierarchy traversal.
    4
    MIT

  • BioMCP

    genomoncology
    A
    license
    A
    quality
    A
    maintenance
    Provides LLMs with structured access to critical biomedical databases including PubTator3 (PubMed/PMC), ClinicalTrials.gov, and MyVariant.info through the Model Context Protocol.
    35
    600
    MIT

  • BioNext-mcp

    Cherine0205
    A
    license
    A
    quality
    D
    maintenance
    Enables bioinformatics analysis through natural language conversations with Claude Desktop, automatically generating and executing Python scripts to produce HTML reports and visualizations.
    3
    13
    9
    MIT

  • BioMCP

    yeyuan98
    A
    license
    A
    quality
    D
    maintenance
    A high-performance MCP server that gives LLMs access to 25 biomedical tools federated across 50+ upstream APIs for genes, variants, drugs, diseases, literature, clinical trials, and structural biology.
    25
    67
    2
    MIT

  • PDB MCP Server

    Augmented-Nature
    F
    license
    A
    quality
    F
    maintenance
    A Model Context Protocol (MCP) server that provides access to the Protein Data Bank (PDB) - the worldwide repository of information about the 3D structures of proteins, nucleic acids, and complex assemblies.
    5
    25

  • Wegene Assistant MCP Server

    xraywu
    F
    license
    A
    quality
    D
    maintenance
    Leverages large language models to analyze users' WeGene genetic testing reports, providing access to report data via custom URI schemes and enabling profile and report management through OAuth authentication and API utilization.
    4
    4
  • PDBe MCP Servers by PDBeurope

    PDBe MCP Serversofficial

    PDBeurope
    A
    license
    B
    quality
    A
    maintenance
    Provides seamless access to the Protein Data Bank in Europe (PDBe) API and search capabilities, enabling AI clients to query protein structures, perform advanced searches, and retrieve structural biology data.
    33
    37
    Apache 2.0

  • UniProt MCP Server

    josefdc
    A
    license
    B
    quality
    D
    maintenance
    Provides seamless access to UniProtKB protein database, enabling queries for protein entries, sequences, Gene Ontology annotations, full-text search, and ID mapping across 200+ database types.
    5
    2
    MIT

  • mcp-alphafold

    zeinab-sheikhi
    F
    license
    B
    quality
    D
    maintenance
    Provides programmatic access to AlphaFold protein structure predictions and UniProt data, enabling users to retrieve protein structures, summaries, and annotations through natural language.
    3

  • STRING-MCP

    MCPmed
    A
    license
    B
    quality
    D
    maintenance
    A Model Context Protocol server that provides tools for interacting with the STRING database to analyze protein-protein interaction networks and functional enrichment. It enables users to map protein identifiers, retrieve interaction data, and generate biological network visualizations through natural language interfaces.
    11
    3
    BSD 3-Clause